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  • Tumor-Infiltrating Lymphocytes Maps from TCGA H&E Whole Slide Pathology Images (TIL-WSI-TCGA)

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Summary

Mappings of tumor-infiltrating lymphocytes (TILs), based on H&E images from 13 of The Cancer Genome Atlas (TCGA) tumor types are available here. These TIL maps are derived through computational staining, using a convolutional neural network trained to classify patches of images. In addition to the TIL Maps, the analysis codes and the software used to extract TILs are also available.  The accompanying paper contains detailed information about our methods and our findings.  The source histopathology, molecular correlates and clinical data used in this study can be found on the Genomic Data Commons.  More information about the tools used to generate these results can be found  on the QuIP Software Stack and TIL Classification Software pages.  Answers to commonly asked questions about these data are contained in this FAQs document. 

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Localtab Group



Localtab
activetrue
titleData Access

Data Access

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Data TypeDownload all or Query/FilterLicense
TIL Maps

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H&E Images and Clinical Data (external)

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Tcia button generator
labelSearch
urlhttps://cancerimagingarchive.net/datascope/TCGA_TilMap/



Tcia cc by 3

Clinical and Molecular Correlates (external)

Click the Versions tab for more info about data releases.

Nci_crdc additional resources

Additional resources:

The following external resources have been made available by the data submitters.  These are not hosted or supported by TCIA, but may be useful to researchers utilizing this collection.

Collections Used in this Third Party Analysis


Below is a list of the TCIA Collections used in these analyses:




Localtab
titleDetailed Description

Detailed Description

Please contact help@cancerimagingarchive.net with any questions regarding usage.




Localtab
titleCitations & Data Usage Policy

Citations & Data Usage Policy 

publictcia-collectionlimited-license-policy

Info
titleData Citation

Saltz, J., Gupta, R., Hou, L., Kurc, T., Singh, P., Nguyen, V., Samaras, D., Shroyer, K. R., Zhao, T., Batiste, R., Van Arnam, J., The Cancer Genome Atlas Research Network, Shmulevich, I., Rao, A. U. K., Lazar, A. J., Sharma, A., & Thorsson, V. (2018). Tumor-Infiltrating Lymphocytes Maps from TCGA H&E Whole Slide Pathology Images [Data set]. The Cancer Imaging Archive. https://doi.org/10.7937/K9/TCIA.2018.Y75F9W1


Info
titlePublication Citation

Saltz, J., Gupta, R., Hou, L., Kurc, T., Singh, P., Nguyen, V., Samaras, D., Shroyer, K. R., Zhao, T., Batiste, R., Van Arnam, J., The Cancer Genome Atlas Research Network, Shmulevich, I., Rao, A. U. K., Lazar, A. J., Sharma, A., Thorsson, V. (2018). Spatial Organization and Molecular Correlation of Tumor-Infiltrating Lymphocytes Using Deep Learning on Pathology Images. Cell Reports, 23(1), 181-193.e7. https://doi.org/10.1016/j.celrep.2018.03.086


Info
titleTCIA Citation

Clark, K., Vendt, B., Smith, K., Freymann, J., Kirby, J., Koppel, P., Moore, S., Phillips, S., Maffitt, D., Pringle, M., Tarbox, L., & Prior, F. (2013). The Cancer Imaging Archive (TCIA): Maintaining and Operating a Public Information Repository. Journal of Digital Imaging, 26(6), 1045–1057. https://doi.org/10.1007/s10278-013-9622-7


Other Publications Using This Data

TCIA maintains a list of publications which leverage TCIA data. If you have a publication you'd like to add please contact TCIA's Helpdesk.




Localtab
titleVersions

Version 1 (Current): 2018/12/17


Data TypeDownload all or Query/Filter
TIL Maps

 

H&E Images and Clinical Data (external)

Clinical and Molecular Correlates (external)





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